Integrative multi-omics analysis of the FAR1 gene family in Phaseolus vulgaris

Year 2025, Volume: 34 Issue: 2, 154 - 175

Ahmet Aşkın Yilmaz , Serdar Coşkun , Sümer Aras , İlker Büyük

https://doi.org/10.53447/communc.1657858

Abstract

An essential function of the Far-red impaired response 1 (FAR1) gene family is to regulate the growth and developmental phases of plants. The FAR1 gene family has not yet been examined in Phaseolus vulgaris (common bean), despite the fact that it has been examined in several plant species utilizing bioinformatics technologies. This research was the first that the FAR1 gene family was identified and characterized throughout the whole genome of P. vulgaris. An in-silico approach was employed, utilizing various bioinformatics tools to explore the molecular and physicochemical characteristics of FAR1 genes. Consequently, 26 FAR1 genes were discovered and categorized using phylogenetic analysis into three categories. The analysis of synonymous (Ks) and non-synonymous (Ka) substitution rates, phylogenetic relationships, and synteny patterns provided important insights into the polyploidization, evolution, and domestication of FAR1 genes across P. vulgaris, Arabidopsis thaliana, and Glycine max. Transcriptome analysis demonstrated a tissue-specific expression pattern of FAR1 genes in P. vulgaris. Additionally, in reaction to salt and drought stress in P. vulgaris leaves, several FAR1 genes were discovered to be either activated or downregulated. Overall, the findings of this study offer significant perspectives for further investigations into the molecular processes that underlie the evolution and functional roles of FAR1 genes in P. vulgaris.

Keywords

FAR1 , Phaseolus vulgaris , RNAseq , abiotic stress , multi-omics data mining , bioinformatics

Ethical Statement

This study was conducted in accordance with ethical guidelines for bioinformatics research. No human or animal subjects were involved, and all data used were obtained from publicly available databases, with proper permissions and in compliance with relevant privacy and data protection laws.

Supporting Institution

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Project Number

AAY was awarded a PhD Scholarship from Council of Higher Education (YOK).

Thanks

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